Wednesday, April 5, 2023
11:45 - 12:45
Big Cohort Datasets: which, what and how?
Svenja Caspers, Michael Hanke and Simon Eickhoff
The workshop will introduce the existing neuroimaging cohort data as well as HPC pipelines for high-throughput analyses of the data that are currently used and available in Jülich. Following these introductory talks, participants will engage in a discussion about upcoming possibilities of working with these datasets and further needs both for data as well as computing and analysis approaches.
siibra – software interfaces to a multilevel brain atlas spanning scales and modalities
Xiao Gui, Kimberly Lothmann, Ahmet Simsek and Sebastian Bludau
The workshop will introduce the siibra tool suite, which implements a multilevel atlas of the human brain by providing streamlined access to reference templates at different spatial scales, complementary parcellation maps, and multimodal data features. The workshop will briefly introduce the concepts, then show hands-on examples of exploring the framework in a web-based 3D viewer (siibra-explorer), and using it in computational workflows through a Python library (siibra-python).
Reproducible analysis of electrophysiological data using Neo, Elephant, and Alpaca
Michael Denker and Moritz Kern
In this workshop, we will cover the fundamentals of analyzing electrophysiological data on the basis of a real-world recording of neuronal activity using multiple Python toolboxes: Neo for data representation, Elephant for data analytics, and Alpaca for provenance tracking. In parallel to the presentations introducing the tools, participants are invited to follow along on a guided tour based on readily prepared Jupyter notebooks and to discuss current and upcoming challenges in their data analysis.
Using NEST interactively on HPC
Sandra Diaz
The goal of this workshop will be to show participants how to use the NEST simulator on the HPC infrastructure at Jülich in an interactive mode using iPython notebooks and NEST Destktop to launch computationally intensive jobs on the supercomputer. The workshop will help participants get to know other alternatives to using NEST on HPC for their scientific workflows.
